Hotspot

ccsA-ndhD

SSC · 112410-112697 · 288 bp

Back to Holcoglossum

Pi 0.0356

MarkerSeek score 67.60

Primer available yes

Label ccsA-ndhD

Feature Metadata

label_name: ccsA-ndhD
feature_type: igs
region: SSC
length_bp: 288
variable_sites: 28
pi: 0.0356
unique_haplotype_count: 12
primer_available: yes
alignment_reliability: 0.93
markerseek_score: 67.60

Pi Curve

Haplotype Network

Species Separation

Primer Ranking

Primer ID	fwd_seq	rev_seq	fwd_gc	rev_gc	fwd_tm	rev_tm	amplicon_size	cross_species_success_rate	primer_score
ccsA-ndhD_p1	AGGCATTCTTTCTGGAGCAG	TTGCATTGCCAGGAATGAGT	50.0	45.0	57.9	58.1	869-896 bp	1.0	85.7
ccsA-ndhD_p2	GGCATTCTTTCTGGAGCAGT	TTGCATTGCCAGGAATGAGT	50.0	45.0	58.2	58.1	868-895 bp	1.0	85.4
ccsA-ndhD_p3	ATGCAGCTCTTTTATGCGGA	TTGCATTGCCAGGAATGAGT	45.0	45.0	58.0	58.1	1140-1167 bp	1.0	85.1
ccsA-ndhD_p4	TGCAGCTCTTTTATGCGGAT	TTGCATTGCCAGGAATGAGT	45.0	45.0	58.0	58.1	1139-1166 bp	1.0	85.1
ccsA-ndhD_p5	TTTTACCCAAGGTTTCGCCA	TTGCATTGCCAGGAATGAGT	45.0	45.0	57.9	58.1	1259-1279 bp	0.769231	75.2